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Aggregate Interactome Based on Protein Cross-linking Interfaces Predicts Drug Targets to Limit Aggregation in Neurodegenerative Diseases.

Balasubramaniam M, Ayyadevara S, Ganne A, Kakraba S, Penthala NR, Du X, Crooks PA, Griffin ST, Shmookler Reis RJ.

iScience. 2019 Oct 25;20:248-264. doi: 10.1016/j.isci.2019.09.026. Epub 2019 Sep 21.


A universal transcriptomic signature of age reveals the temporal scaling of Caenorhabditis elegans aging trajectories.

Tarkhov AE, Alla R, Ayyadevara S, Pyatnitskiy M, Menshikov LI, Shmookler Reis RJ, Fedichev PO.

Sci Rep. 2019 May 14;9(1):7368. doi: 10.1038/s41598-019-43075-z.


Functional assessments through novel proteomics approaches: Application to insulin/IGF signaling in neurodegenerative disease'.

Ayyadevara S, Ganne A, Hendrix RD, Balasubramaniam M, Shmookler Reis RJ, Barger SW.

J Neurosci Methods. 2019 May 1;319:40-46. doi: 10.1016/j.jneumeth.2018.11.005. Epub 2018 Nov 6.


Structural insights into pro-aggregation effects of C. elegans CRAM-1 and its human ortholog SERF2.

Balasubramaniam M, Ayyadevara S, Shmookler Reis RJ.

Sci Rep. 2018 Oct 5;8(1):14891. doi: 10.1038/s41598-018-33143-1.


ALS-causing mutations in profilin-1 alter its conformational dynamics: A computational approach to explain propensity for aggregation.

Kiaei M, Balasubramaniam M, Govind Kumar V, Shmookler Reis RJ, Moradi M, Varughese KI.

Sci Rep. 2018 Aug 30;8(1):13102. doi: 10.1038/s41598-018-31199-7.


Apolipoprotein E4 inhibits autophagy gene products through direct, specific binding to CLEAR motifs.

Parcon PA, Balasubramaniam M, Ayyadevara S, Jones RA, Liu L, Shmookler Reis RJ, Barger SW, Mrak RE, Griffin WST.

Alzheimers Dement. 2018 Feb;14(2):230-242. doi: 10.1016/j.jalz.2017.07.754. Epub 2017 Sep 22.


Aspirin-Mediated Acetylation Protects Against Multiple Neurodegenerative Pathologies by Impeding Protein Aggregation.

Ayyadevara S, Balasubramaniam M, Kakraba S, Alla R, Mehta JL, Shmookler Reis RJ.

Antioxid Redox Signal. 2017 Dec 10;27(17):1383-1396. doi: 10.1089/ars.2016.6978. Epub 2017 Jun 28.


Proteins that accumulate with age in human skeletal-muscle aggregates contribute to declines in muscle mass and function in Caenorhabditis elegans.

Ayyadevara S, Balasubramaniam M, Suri P, Mackintosh SG, Tackett AJ, Sullivan DH, Shmookler Reis RJ, Dennis RA.

Aging (Albany NY). 2016 Dec 15;8(12):3486-3497. doi: 10.18632/aging.101141.


Proteins that mediate protein aggregation and cytotoxicity distinguish Alzheimer's hippocampus from normal controls.

Ayyadevara S, Balasubramaniam M, Parcon PA, Barger SW, Griffin WS, Alla R, Tackett AJ, Mackintosh SG, Petricoin E, Zhou W, Shmookler Reis RJ.

Aging Cell. 2016 Oct;15(5):924-39. doi: 10.1111/acel.12501. Epub 2016 Jul 23.


PIP3-binding proteins promote age-dependent protein aggregation and limit survival in C. elegans.

Ayyadevara S, Balasubramaniam M, Johnson J, Alla R, Mackintosh SG, Shmookler Reis RJ.

Oncotarget. 2016 Aug 2;7(31):48870-48886. doi: 10.18632/oncotarget.10549.


Age- and Hypertension-Associated Protein Aggregates in Mouse Heart Have Similar Proteomic Profiles.

Ayyadevara S, Mercanti F, Wang X, Mackintosh SG, Tackett AJ, Prayaga SV, Romeo F, Shmookler Reis RJ, Mehta JL.

Hypertension. 2016 May;67(5):1006-13. doi: 10.1161/HYPERTENSIONAHA.115.06849. Epub 2016 Mar 14.


A Cyclin-Dependent Kinase Inhibitor, Dinaciclib, Impairs Homologous Recombination and Sensitizes Multiple Myeloma Cells to PARP Inhibition.

Alagpulinsa DA, Ayyadevara S, Yaccoby S, Shmookler Reis RJ.

Mol Cancer Ther. 2016 Feb;15(2):241-50. doi: 10.1158/1535-7163.MCT-15-0660. Epub 2015 Dec 30.


Stability analysis of a model gene network links aging, stress resistance, and negligible senescence.

Kogan V, Molodtsov I, Menshikov LI, Shmookler Reis RJ, Fedichev P.

Sci Rep. 2015 Aug 28;5:13589. doi: 10.1038/srep13589.


Cross-talk between LOX-1 and PCSK9 in vascular tissues.

Ding Z, Liu S, Wang X, Deng X, Fan Y, Shahanawaz J, Shmookler Reis RJ, Varughese KI, Sawamura T, Mehta JL.

Cardiovasc Res. 2015 Sep 1;107(4):556-67. doi: 10.1093/cvr/cvv178. Epub 2015 Jun 19.


A peptide nucleic acid targeting nuclear RAD51 sensitizes multiple myeloma cells to melphalan treatment.

Alagpulinsa DA, Yaccoby S, Ayyadevara S, Shmookler Reis RJ.

Cancer Biol Ther. 2015;16(6):976-86. doi: 10.1080/15384047.2015.1040951. Epub 2015 May 21.


A Small-Molecule Inhibitor of RAD51 Reduces Homologous Recombination and Sensitizes Multiple Myeloma Cells to Doxorubicin.

Alagpulinsa DA, Ayyadevara S, Shmookler Reis RJ.

Front Oncol. 2014 Oct 30;4:289. doi: 10.3389/fonc.2014.00289. eCollection 2014.


Rec-8 dimorphism affects longevity, stress resistance and X-chromosome nondisjunction in C. elegans, and replicative lifespan in S. cerevisiae.

Ayyadevara S, Tazearslan C, Alla R, Jiang JC, Jazwinski SM, Shmookler Reis RJ.

Front Genet. 2014 Aug 4;5:211. doi: 10.3389/fgene.2014.00211. eCollection 2014.


Extreme Depletion of PIP3 Accompanies the Increased Life Span and Stress Tolerance of PI3K-null C. elegans Mutants.

Bharill P, Ayyadevara S, Alla R, Shmookler Reis RJ.

Front Genet. 2013 Mar 28;4:34. doi: 10.3389/fgene.2013.00034. eCollection 2013.


Photoacoustically-guided photothermal killing of mosquitoes targeted by nanoparticles.

Foster SR, Galanzha EI, Totten DC, BeneŇ° H, Shmookler Reis RJ, Zharov VP.

J Biophotonics. 2014 Jul;7(7):465-73. doi: 10.1002/jbio.201200199. Epub 2013 Mar 1.


Coming to terms with complexity: limits to a reductionist view of aging.

Shmookler Reis RJ.

Front Genet. 2012 Aug 27;3:149. doi: 10.3389/fgene.2012.00149. eCollection 2012. No abstract available.


Aspirin inhibits oxidant stress, reduces age-associated functional declines, and extends lifespan of Caenorhabditis elegans.

Ayyadevara S, Bharill P, Dandapat A, Hu C, Khaidakov M, Mitra S, Shmookler Reis RJ, Mehta JL.

Antioxid Redox Signal. 2013 Feb 10;18(5):481-90. doi: 10.1089/ars.2011.4151. Epub 2012 Sep 7.


What is Aging?

Rose MR, Flatt T, Graves JL, Greer LF, Martinez DE, Matos M, Mueller LD, Shmookler Reis RJ, Shahrestani P.

Front Genet. 2012 Jul 20;3:134. doi: 10.3389/fgene.2012.00134. eCollection 2012. No abstract available.


Photothermal confocal spectromicroscopy of multiple cellular chromophores and fluorophores.

Nedosekin DA, Galanzha EI, Ayyadevara S, Shmookler Reis RJ, Zharov VP.

Biophys J. 2012 Feb 8;102(3):672-81. doi: 10.1016/j.bpj.2011.12.035. Epub 2012 Feb 7. Erratum in: Biophys J. 2012 Mar 7;102(5):1235.


A narrow quantitative trait locus in C. elegans coordinately affects longevity, thermotolerance, and resistance to paraquat.

Vertino A, Ayyadevara S, Thaden JJ, Shmookler Reis RJ.

Front Genet. 2011 Sep 27;2:63. doi: 10.3389/fgene.2011.00063. eCollection 2011.


Gene categories differentially expressed in C. elegans age-1 mutants of extraordinary longevity: new insights from novel data-mining procedures.

Shmookler Reis RJ, Ayyadevara S, Crow WA, Lee T, Delongchamp RR.

J Gerontol A Biol Sci Med Sci. 2012 Apr;67(4):366-75. doi: 10.1093/gerona/glr186. Epub 2011 Oct 21.


Genomic evolution in Barrett's adenocarcinoma cells: critical roles of elevated hsRAD51, homologous recombination and Alu sequences in the genome.

Pal J, Bertheau R, Buon L, Qazi A, Batchu RB, Bandyopadhyay S, Ali-Fehmi R, Beer DG, Weaver DW, Shmookler Reis RJ, Goyal RK, Huang Q, Munshi NC, Shammas MA.

Oncogene. 2011 Aug 18;30(33):3585-98. doi: 10.1038/onc.2011.83. Epub 2011 Mar 21.


Modulation of lipid biosynthesis contributes to stress resistance and longevity of C. elegans mutants.

Shmookler Reis RJ, Xu L, Lee H, Chae M, Thaden JJ, Bharill P, Tazearslan C, Siegel E, Alla R, Zimniak P, Ayyadevara S.

Aging (Albany NY). 2011 Feb;3(2):125-47.


Histoplasma capsulatum and Caenorhabditis elegans: a simple nematode model for an innate immune response to fungal infection.

Johnson CH, Ayyadevara S, McEwen JE, Shmookler Reis RJ.

Med Mycol. 2009 Dec;47(8):808-13. doi: 10.3109/13693780802660532.


Caenorhabditis elegans PI3K mutants reveal novel genes underlying exceptional stress resistance and lifespan.

Ayyadevara S, Tazearslan C, Bharill P, Alla R, Siegel E, Shmookler Reis RJ.

Aging Cell. 2009 Dec;8(6):706-25. doi: 10.1111/j.1474-9726.2009.00524.x. Epub 2009 Sep 17.


Extreme-longevity mutations orchestrate silencing of multiple signaling pathways.

Shmookler Reis RJ, Bharill P, Tazearslan C, Ayyadevara S.

Biochim Biophys Acta. 2009 Oct;1790(10):1075-83. doi: 10.1016/j.bbagen.2009.05.011. Epub 2009 May 22. Review.


Positive feedback between transcriptional and kinase suppression in nematodes with extraordinary longevity and stress resistance.

Tazearslan C, Ayyadevara S, Bharill P, Shmookler Reis RJ.

PLoS Genet. 2009 Apr;5(4):e1000452. doi: 10.1371/journal.pgen.1000452. Epub 2009 Apr 10.


Dysfunctional homologous recombination mediates genomic instability and progression in myeloma.

Shammas MA, Shmookler Reis RJ, Koley H, Batchu RB, Li C, Munshi NC.

Blood. 2009 Mar 5;113(10):2290-7. doi: 10.1182/blood-2007-05-089193. Epub 2008 Dec 2.


An iterative block-shifting approach to retention time alignment that preserves the shape and area of gas chromatography-mass spectrometry peaks.

Chae M, Shmookler Reis RJ, Thaden JJ.

BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S15. doi: 10.1186/1471-2105-9-S9-S15.


Remarkable longevity and stress resistance of nematode PI3K-null mutants.

Ayyadevara S, Alla R, Thaden JJ, Shmookler Reis RJ.

Aging Cell. 2008 Jan;7(1):13-22. Epub 2007 Nov 7.


A novel locus on the X chromosome regulates post-maturity bone density changes in mice.

Szumska D, Benes H, Kang P, Weinstein RS, Jilka RL, Manolagas SC, Shmookler Reis RJ.

Bone. 2007 Mar;40(3):758-66. Epub 2006 Dec 19.


Life span and stress resistance of Caenorhabditis elegans are differentially affected by glutathione transferases metabolizing 4-hydroxynon-2-enal.

Ayyadevara S, Dandapat A, Singh SP, Siegel ER, Shmookler Reis RJ, Zimniak L, Zimniak P.

Mech Ageing Dev. 2007 Feb;128(2):196-205. Epub 2006 Dec 8.


Direct repeats in mitochondrial DNA and mammalian lifespan.

Khaidakov M, Siegel ER, Shmookler Reis RJ.

Mech Ageing Dev. 2006 Oct;127(10):808-12. Epub 2006 Sep 7.


Quantitative trait loci define genes and pathways underlying genetic variation in longevity.

Shmookler Reis RJ, Kang P, Ayyadevara S.

Exp Gerontol. 2006 Oct;41(10):1046-54. Epub 2006 Aug 17. Review.


Lifespan extension in hypomorphic daf-2 mutants of Caenorhabditis elegans is partially mediated by glutathione transferase CeGSTP2-2.

Ayyadevara S, Dandapat A, Singh SP, Benes H, Zimniak L, Shmookler Reis RJ, Zimniak P.

Aging Cell. 2005 Dec;4(6):299-307.


Interspecies synteny mapping identifies a quantitative trait locus for bone mineral density on human chromosome Xp22.

Parsons CA, Mroczkowski HJ, McGuigan FE, Albagha OM, Manolagas S, Reid DM, Ralston SH, Shmookler Reis RJ.

Hum Mol Genet. 2005 Nov 1;14(21):3141-8. Epub 2005 Sep 23.


Lifespan and stress resistance of Caenorhabditis elegans are increased by expression of glutathione transferases capable of metabolizing the lipid peroxidation product 4-hydroxynonenal.

Ayyadevara S, Engle MR, Singh SP, Dandapat A, Lichti CF, Benes H, Shmookler Reis RJ, Liebau E, Zimniak P.

Aging Cell. 2005 Oct;4(5):257-71.


Possibility of selection against mtDNA mutations in tumors.

Khaidakov M, Shmookler Reis RJ.

Mol Cancer. 2005 Sep 13;4:36. Review.


Molecular pathology of aging and its implications for senescent coronary atherosclerosis.

McEwen JE, Zimniak P, Mehta JL, Shmookler Reis RJ.

Curr Opin Cardiol. 2005 Sep;20(5):399-406. Review.


Contribution of de novo point mutations to the overall mutational burden in mitochondrial DNA of adult rats.

Khaidakov M, Chavannes-Turesky N, Cooney CA, Dupont-Versteegden EE, Kennedy RH, Siegel ER, Khaidakova G, Shmookler Reis RJ.

Exp Gerontol. 2005 May;40(5):396-402. Epub 2005 Mar 28.


Targeting the single-strand G-rich overhang of telomeres with PNA inhibits cell growth and induces apoptosis of human immortal cells.

Shammas MA, Liu X, Gavory G, Raney KD, Balasubramanian S, Shmookler Reis RJ.

Exp Cell Res. 2004 Apr 15;295(1):204-14.


Telomerase inhibition and cell growth arrest after telomestatin treatment in multiple myeloma.

Shammas MA, Shmookler Reis RJ, Li C, Koley H, Hurley LH, Anderson KC, Munshi NC.

Clin Cancer Res. 2004 Jan 15;10(2):770-6.


Telomerase inhibition and cell growth arrest by G-quadruplex interactive agent in multiple myeloma.

Shammas MA, Shmookler Reis RJ, Akiyama M, Koley H, Chauhan D, Hideshima T, Goyal RK, Hurley LH, Anderson KC, Munshi NC.

Mol Cancer Ther. 2003 Sep;2(9):825-33.


Animal models for discovery and assessment of genetic determinants of osteoporosis.

Shmookler Reis RJ, Ebert RH 2nd.

Osteoporos Int. 2003 Sep;14 Suppl 5:S100-6. Epub 2003 Aug 29. Review. No abstract available.


Genetic loci modulating fitness and life span in Caenorhabditis elegans: categorical trait interval mapping in CL2a x Bergerac-BO recombinant-inbred worms.

Ayyadevara S, Ayyadevara R, Vertino A, Galecki A, Thaden JJ, Shmookler Reis RJ.

Genetics. 2003 Feb;163(2):557-70.


From QTL mapping to genes: the long and winding road.

Shmookler Reis RJ.

J Bone Miner Res. 2003 Feb;18(2):186-9. No abstract available.

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